User:Morgan G. I. Langille/Notebook/Unknown Genes/2010/09/30

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Alpha diversity

  • Calculated alpha diversity for GOS (and other) samples using PFAM counts
    • This command generates the output files: ./col_alphadiversity.R camera_proteins_vs_pfam.txt alpha_diversity
    • The output files are labeled "alpha_diversity_" followed by the name of the diversity measurement.
    • Each diversity metric is output in two files:
      • "by_sample" just lists the alpha measurements for each sample
      • "hist.pdf" is a pdf of the histogram of the measurements
      • Also, there is a "_plot.pdf" that shows a simple x,y plot of the two alpha measurements.



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